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baoe / AlignGraph

Algorithm for secondary de novo genome assembly guided by closely related references
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Reference genome question regarding mate pairs #18

Open ergarzaz opened 8 years ago

ergarzaz commented 8 years ago

Hi, I noticed that in your FAQ section, you recommend not to use mate pair libraries. Will there be a problem if I use a mate pair created assembly as a reference to assemble paired end reads? I was unsure if the mate pair library comment was only meant for mapping mate pairs to a reference or it should not be used at all.

baoe commented 8 years ago

Hi,

It just means not mapping mate pairs.

Best, Bao

From: Elyssa Garza [notifications@github.com] Sent: Tuesday, February 23, 2016 2:11 PM To: baoe/AlignGraph Subject: [AlignGraph] Reference genome question regarding mate pairs (#18)

Hi, I noticed that in your FAQ section, you recommend not to use mate pair libraries. Will there be a problem if I use a mate pair created assembly as a reference to assemble paired end reads? I was unsure if the mate pair library comment was only meant for mapping mate pairs to a reference or it should not be used at all.

— Reply to this email directly or view it on GitHubhttps://github.com/baoe/AlignGraph/issues/18.